Warning: Undefined array key "mm" in /www/wwwroot/www.ai-bt.com/si.php on line 10 Deprecated: trim(): Passing null to parameter #1 ($string) of type string is deprecated in /www/wwwroot/www.ai-bt.com/si.php on line 10 ICB database: the gyrB database for identification and classification of bacteria.

Literature DB >> 11125132

ICB database: the gyrB database for identification and classification of bacteria.

K Watanabe¹, J Nelson, S Harayama, H Kasai.

Abstract

The Identification and Classification of Bacteria (ICB) database (http:/www.mbio.co.jp/icb) contains currently available information about the DNA gyrase subunit B (gyrB) gene in bacteria. The database is designed to provide the scientific community with a reference point for using gyrB as an evolutionary and taxonomic marker. Nucleic and amino acid sequence data are currently available for over 850 strains, along with alignments at several different taxonomic levels and an exhaustive review of primer selection and background information.

Mesh：

Substances：

Year: 2001 PMID： 11125132 PMCID： PMC29849 DOI： 10.1093/nar/29.1.344

Source DB: PubMed Journal: Nucleic Acids Res ISSN： 0305-1048 Impact factor: 16.971

12 in total

1. DNA data bank of Japan (DDBJ) in collaboration with mass sequencing teams.

Authors: Y Tateno; S Miyazaki; M Ota; H Sugawara; T Gojobori
Journal: Nucleic Acids Res Date: 2000-01-01 Impact factor: 16.971

2. The EMBL nucleotide sequence database.

Authors: W Baker; A van den Broek; E Camon; P Hingamp; P Sterk; G Stoesser; M A Tuli
Journal: Nucleic Acids Res Date: 2000-01-01 Impact factor: 16.971

3. The RDP (Ribosomal Database Project) continues.

Authors: B L Maidak; J R Cole; T G Lilburn; C T Parker; P R Saxman; J M Stredwick; G M Garrity; B Li; G J Olsen; S Pramanik; T M Schmidt; J M Tiedje
Journal: Nucleic Acids Res Date: 2000-01-01 Impact factor: 16.971

4. GenBank.

Authors: D A Benson; I Karsch-Mizrachi; D J Lipman; J Ostell; B A Rapp; D L Wheeler
Journal: Nucleic Acids Res Date: 2000-01-01 Impact factor: 16.971

5. The European small subunit ribosomal RNA database.

Authors: Y Van de Peer; P De Rijk; J Wuyts; T Winkelmans; R De Wachter
Journal: Nucleic Acids Res Date: 2000-01-01 Impact factor: 16.971

6. Construction of the gyrB Database for the Identification and Classification of Bacteria.

Authors:
Journal: Genome Inform Ser Workshop Genome Inform Date: 1998

7. Analysis of topoisomerase function in bacterial replication fork movement: use of DNA microarrays.

Authors: A B Khodursky; B J Peter; M B Schmid; J DeRisi; D Botstein; P O Brown; N R Cozzarelli
Journal: Proc Natl Acad Sci U S A Date: 2000-08-15 Impact factor: 11.205

Review 8. Protein phylogenies and signature sequences: A reappraisal of evolutionary relationships among archaebacteria, eubacteria, and eukaryotes.

Authors: R S Gupta
Journal: Microbiol Mol Biol Rev Date: 1998-12 Impact factor: 11.056

9. Multiple sequence alignment with Clustal X.

Authors: F Jeanmougin; J D Thompson; M Gouy; D G Higgins; T J Gibson
Journal: Trends Biochem Sci Date: 1998-10 Impact factor: 13.807

10. Evolution in bacteria: evidence for a universal substitution rate in cellular genomes.

Authors: H Ochman; A C Wilson
Journal: J Mol Evol Date: 1987 Impact factor: 2.395

14 in total

Review 1. Call for a quality standard for sequence-based assays in clinical microbiology: necessity for quality assessment of sequences used in microbial identification and typing.

Authors: Anthony Underwood; Jonathan Green
Journal: J Clin Microbiol Date: 2010-11-10 Impact factor: 5.948

Review 2. Sequence-based identification of new bacteria: a proposition for creation of an orphan bacterium repository.

Authors: M Drancourt; D Raoult
Journal: J Clin Microbiol Date: 2005-09 Impact factor: 5.948

3. Emergence shapes the structure of the seed microbiota.

Authors: Matthieu Barret; Martial Briand; Sophie Bonneau; Anne Préveaux; Sophie Valière; Olivier Bouchez; Gilles Hunault; Philippe Simoneau; Marie-Agnès Jacquesa
Journal: Appl Environ Microbiol Date: 2015-02 Impact factor: 4.792

4. A novel metatranscriptomic approach to identify gene expression dynamics during extracellular electron transfer.

Authors: Shun'ichi Ishii; Shino Suzuki; Trina M Norden-Krichmar; Aaron Tenney; Patrick S G Chain; Matthew B Scholz; Kenneth H Nealson; Orianna Bretschger
Journal: Nat Commun Date: 2013 Impact factor: 14.919

5. Selective enumeration strategies for Brevundimonas diminuta from drinking water.

Authors: Robert Scott Donofrio; Lorelle L Bestervelt; Ratul Saha; Susan T Bagley
Journal: J Ind Microbiol Biotechnol Date: 2010-01-20 Impact factor: 3.346

6. Characterization of Exiguobacterium isolates from the Siberian permafrost. Description of Exiguobacterium sibiricum sp. nov.

Authors: Debora Frigi Rodrigues; Johan Goris; Tatiana Vishnivetskaya; David Gilichinsky; Michael F Thomashow; James M Tiedje
Journal: Extremophiles Date: 2006-02-18 Impact factor: 2.395

Review 7. Gordonia araii infection associated with an orthopedic device and review of the literature on medical device-associated Gordonia infections.

Authors: Deanna P Jannat-Khah; Eric S Halsey; Brent A Lasker; Arnold G Steigerwalt; Hans P Hinrikson; June M Brown
Journal: J Clin Microbiol Date: 2008-12-24 Impact factor: 5.948

8. Phylogenetic characterization and prevalence of "Spirobacillus cienkowskii," a red-pigmented, spiral-shaped bacterial pathogen of freshwater Daphnia species.

Authors: Jorge L M Rodrigues; Meghan A Duffy; Alan J Tessier; Dieter Ebert; Laurence Mouton; Thomas M Schmidt
Journal: Appl Environ Microbiol Date: 2008-01-11 Impact factor: 4.792

9. Data mining of enzymes using specific peptides.

Authors: Uri Weingart; Yair Lavi; David Horn
Journal: BMC Bioinformatics Date: 2009-12-24 Impact factor: 3.169

10. Development of ListeriaBase and comparative analysis of Listeria monocytogenes.

Authors: Mui Fern Tan; Cheuk Chuen Siow; Avirup Dutta; Naresh Vr Mutha; Wei Yee Wee; Hamed Heydari; Shi Yang Tan; Mia Yang Ang; Guat Jah Wong; Siew Woh Choo
Journal: BMC Genomics Date: 2015-10-06 Impact factor: 3.969